tbuckley/cabot-search huggingface dataset:
Characterizing Gender Eligibility Descriptions for Clinical Trials Registered on ClinicalTrials.gov
Authors: Amanda Burton, Swapna Mohan, Yvonne Puplampu-Dove, Tony Tse
Journal: JAMA (2023)

This cross-sectional, exploratory study uses ClinicalTrials.gov data from trials initiated on or after January 18, 2017, to characterize the use of a new free-text “gender eligibility description” data field; reports the frequency of gender identity terms used; and assesses the correct or incorrect use of the field.
Gut virome in inflammatory bowel disease and beyond
Authors: Hein Min Tun, Ye Peng, Luca Massimino, Zhen Ye Sin, Tommaso Lorenzo Parigi, Amanda Facoetti, Shaila Rahman, Silvio Danese, Federica Ungaro
Journal: Gut (2023)

The gut virome is a dense community of viruses inhabiting the gastrointestinal tract and an integral part of the microbiota. The virome coexists with the other components of the microbiota and with the host in a dynamic equilibrium, serving as a key contributor to the maintenance of intestinal homeostasis and functions. However, this equilibrium can be interrupted in certain pathological states, including inflammatory bowel disease, causing dysbiosis that may participate in disease pathogenesis. Nevertheless, whether virome dysbiosis is a causal or bystander event requires further clarification.
Negatively charged bladder acellular matrix loaded with positively charged adipose-derived mesenchymal stem cell-derived small extracellular vesicles for bladder tissue engineering
Authors: Tianli Yang, Feng Zhao, Jun Zhao, Jian Geng, Cheng Shao, Jingyu Liu, Fei Sheng, Liuhua Zhou, Hua Xu, Ruipeng Jia
Journal: Journal of Controlled Release (2023)

Adipose-derived mesenchymal stem cell-derived small extracellular vesicles (Ad-MSC-sEVs/AMEs) combined with scaffold materials are used in tissue-engineered bladders; however, the lack of retention leads to limited distribution of AMEs in the scaffold areas and low bioavailability of AMEs after bladder reconstruction. To improve retention of AMEs, we developed a novel strategy that modifies the surface charge of the bladder acellular matrix (BAM) via oxidative self-polymerization of dopamine-reducing graphene oxide (GO) and AMEs using ε-polylysine-polyethylene-distearyl phosphatidylethanolamine (PPD). We evaluated two BAM surface modification methods and evaluated the biocompatibility of materials and PPD and electrostatic adherence effects between PPD-modified AMEs and rGO-PDA/BAM in vivo and in vitro. Surface modification increased retention of AMEs, enhanced regeneration of bladder structures, and increased electrical conductivity of rGO-PDA/BAM, thereby improving bladder function recovery. RNA-sequencing revealed 543 miRNAs in human AMEs and 514 miRNAs in rat AMEs. A Venn diagram was used to show target genes of miRNA with the highest proportion predicted by the four databases; related biological processes and pathways were predicted by KEGG and GO analyses. We report a strategy for improving bioavailability of AMEs for bladder reconstruction and reveal that enriched miR-21-5p targets PIK3R1 and activates the PI3K/Akt pathway to promote cell proliferation and migration.
Oral cannabidiol (CBD) as add-on to paracetamol for painful chronic osteoarthritis of the knee: a randomized, double-blind, placebo-controlled clinical trial
Authors: Sibylle Pramhas, Teresa Thalhammer, Sebastian Terner, Daniel Pickelsberger, Andreas Gleiss, Sabine Sator, Hans G. Kress
Journal: The Lancet Regional Health - Europe (2023)

Painful knee osteoarthritis (KOA) is common, pharmacological treatment, however, is often hampered by limited tolerability. Cannabidiol, which preclinically showed anti-inflammatory, analgesic activity, could supplement established analgesics, but robust clinical trials are lacking. The aim of our study was to investigate the effects of oral high-dose CBD administered over 8 weeks on pain, function and patient global assessment as an add-on to continued paracetamol in chronic symptomatic KOA.Prospective, randomized, placebo-controlled, double-blind, parallel-group study. Single center, Outpatient Clinic, Department of Special Anaesthesia and Pain Therapy at Medical University of Vienna, Austria. Eligibility criteria included: age: 18-98 years; painful KOA; score ≥5 on the pain subscale of the Western Ontario and McMasters Universities Osteoarthritis (WOMAC) Index; KOA confirmed by imaging. Participants were on continued dosage of paracetamol 3 g/d and randomly assigned by web-based software 1:1 to oral cannabidiol 600 mg/d (n = 43) or placebo (n = 43). Study period: 8 weeks. Primary outcome: Change in WOMAC pain subscale scores (0 = no pain, 10 = worst possible pain) from baseline to week 8 of treatment. Trial Registration: ClinicalTrials.gov Identifier: NCT04607603. Trial is completed.The trial was conducted from October 1, 2020 to March 29, 2022. 159 patients screened, 86 randomized. Among 86 participants (mean age, 62.8 [SD 20.3] years; 60 females [69.8%]), 58 (67.4%) completed the trial. Mean baseline WOMAC pain subscale was 6.0 ± 1.1. Analysis: Intention-to-treat principal. Mean reduction in WOMAC pain subscale was 2.5 (95% CI: 1.8-3.3) in the cannabidiol group and 2.4 (95% CI: 1.7-3.2) in the placebo group with no significant group difference (p = 0.80). Adverse events were significantly more frequent with cannabidiol (cannabidiol: 135 [56%]; placebo: 105 [44%]) (p = 0.008). Rise above baseline of liver aminotransferases and gamma-glutamyltransferase was significantly more common in the cannabidiol (n = 15) than the placebo group (n = 5) (p = 0.02).In KOA patients, oral high-dose add-on cannabidiol had no additional analgesic effect compared to adding placebo to continued paracetamol. Our results do not support the use of cannabidiol as an analgesic supplement in KOA.Trigal Pharma GmbH.
Biomaterial scaffolds in maxillofacial bone tissue engineering: A review of recent advances
Authors: Xiangya Huang, Yaxin Lou, Yihong Duan, He Liu, Jun Tian, Ya Shen, Xi Wei
Journal: Bioactive Materials (2023)

Maxillofacial bone defects caused by congenital malformations, trauma, tumors, and inflammation can severely affect functions and aesthetics of maxillofacial region. Despite certain successful clinical applications of biomaterial scaffolds, ideal bone regeneration remains a challenge in maxillofacial region due to its irregular shape, complex structure, and unique biological functions. Scaffolds that address multiple needs of maxillofacial bone regeneration are under development to optimize bone regeneration capacity, costs, operational convenience. etc. In this review, we first highlight the special considerations of bone regeneration in maxillofacial region and provide an overview of the biomaterial scaffolds for maxillofacial bone regeneration under clinical examination and their efficacy, which provide basis and directions for future scaffold design. Latest advances of these scaffolds are then discussed, as well as future perspectives and challenges. Deepening our understanding of these scaffolds will help foster better innovations to improve the outcome of maxillofacial bone tissue engineering.
Hypoxia endothelial cells-derived exosomes facilitate diabetic wound healing through improving endothelial cell function and promoting M2 macrophages polarization
Authors: Peng Cheng, Xudong Xie, Liangcong Hu, Wu Zhou, Bobin Mi, Yuan Xiong, Hang Xue, Kunyu Zhang, Yuxiao Zhang, Yiqiang Hu, Lang Chen, Kangkang Zha, Bin Lv, Ze Lin, Chuanlu Lin, Guandong Dai, Yixin Hu, Tengbo Yu, Hankun Hu, Guohui Liu, Yingze Zhang
Journal: Bioactive Materials (2023)

It is imperative to develop and implement newer, more effective strategies to address refractory diabetic wounds. As of now, there is currently no optimal solution for these wounds. Hypoxic human umbilical vein endothelial cells (HUVECs)-derived exosomes have been postulated to promote diabetic wound healing, however, its effect and molecular mechanism need further study. In this study, we aimed to investigate whether hypoxic exosomes enhance wound healing in diabetics. Based on our high-throughput sequencing, differentially expressed lncRNAs (including 64 upregulated lncRNAs and 94 downregulated lncRNAs) were found in hypoxic exosomes compared to normoxic exosomes. Interestingly, lncHAR1B was one of the prominently upregulated lncRNAs in hypoxic exosomes, showing a notable correlation with diabetic wound healing. More specifically, hypoxic exosomes were transmitted to surrounding cells, which resulted in a significant increase in lncHAR1B level, thereby relieving the dysfunction of endothelial cells and promoting the switch from M1 to M2 macrophages under high glucose conditions. Mechanistically, lncHAR1B directly interacted with the transcription factor basic helix-loop-helix family member e23 (BHLHE23), which subsequently led to its binding to the KLF transcription factor 4 (KLF4) and promoted KLF4 expression. In our
Personalized 3D‐Printed Scaffolds with Multiple Bioactivities for Bioroot Regeneration (Adv. Healthcare Mater. 28/2023)
Authors: Yibing Huang, Zhijun Zhang, Fei Bi, Huilin Tang, Jiahao Chen, Fangjun Huo, Jie Chen, Tingting Lan, Xiangchen Qiao, Xiutian Sima, Weihua Guo
Journal: Advanced Healthcare Materials (2023)

Tooth Regeneration In article 2300625, Xiutian Sima, Weihua Guo, and co-workers present an innovative approach to tooth regeneration using 3D-printed scaffolds enriched with treated dentin matrix (TDM) that can release multiple types of active proteins. These personalized scaffolds encourage stem cell proliferation, biomimetic mineralization, and angiogenesis, offering an exciting potential avenue for tooth-loss therapy.
Mechanobiology of Ferroptotic Cancer Cells as a Novel “Eat‐Me” Signal: Regulating Efferocytosis through Layer‐by‐Layer Coating (Adv. Healthcare Mater. 28/2023)
Authors: Louis Van der Meeren, Iuliia Efimova, Robin Demuynck, Bogdan Parakhonskiy, Dmitri V. Krysko, Andre G. Skirtach
Journal: Advanced Healthcare Materials (2023)

Immunogenic Cell Death By coating dying tumor cells, represented by the blue mesh around the red cell, the mechanical properties of the dying cells are changed. These properties are measured using atomic force microscopy here represented with the cantilever, laser and quadrant diode. This changing of the mechanical properties affects the interaction with macrophages, here represented by the green cell which is engulfing the coated cell. This work is found in article 2301025 by Louis Van der Meeren, Andre G. Skirtach, and co-workers.
Silk Acid as an Implantable Biomaterial for Tissue Regeneration (Adv. Healthcare Mater. 28/2023)
Authors: Ziyang Sun, Ruochuan Huang, Hao Lyu, Xin Yu, Wenzhao Wang, Jinghang Li, Xingyu Lu, Chengchen Guo
Journal: Advanced Healthcare Materials (2023)

Tissue Regeneration Successful tissue regeneration relies on the proper modulation of immune cells and the overall immune system. In article 2301439, Chengchen Guo and co-workers introduce an innovative implantable biomaterial based on chemically modified silk fibroin, termed “silk acid.” Through an efficient and scalable technique, silk acid is produced with a precisely controlled degree of carboxylation. When implanted subcutaneously, the silk acid material notably promotes M2-type macrophage polarization, highlighting its significant promise for tissue regeneration.
Enzyme‐Responsive Nanoparticles for Dexamethasone Targeted Delivery to Treat Inflammation in Diabetes (Adv. Healthcare Mater. 28/2023)
Authors: Nathan Schiffmann, Yifei Liang, Carlos E. Nemcovsky, Michal Almogy, Michal Halperin‐Sternfeld, Nathan C. Gianneschi, Lihi Adler‐Abramovich, Eyal Rosen
Journal: Advanced Healthcare Materials (2023)

Extrusion Bioprinting In article 2301053 by Nathan C. Gianneschi, Lihi Adler-Abramovich, Eyal Rosen, and co-workers, enzyme-responsive nanoparticles are employed for the targeted delivery of the anti-inflammatory drug dexamethasone to treat inflammation in diabetics. The nanoparticles show inflammation-related enzyme-induced aggregation, sustained accumulation capacities, and improved therapeutic efficacy, thus demonstrating their potential as targeted delivery vehicles for treating diabetic and other inflammatory conditions.
Wireless Electric Cues Mediate Autologous DPSC‐Loaded Conductive Hydrogel Microspheres to Engineer the Immuno‐Angiogenic Niche for Homologous Maxillofacial Bone Regeneration
Authors: Jiwei Sun, Chao Xu, Keqi Wo, Yifan Wang, Junyuan Zhang, Haoqi Lei, Xiaohan Wang, Yunsong Shi, Wenjie Fan, Baoying Zhao, Jinyu Wang, Bin Su, Cheng Yang, Zhiqiang Luo, Lili Chen
Journal: Advanced Healthcare Materials (2023)

Abstract Stem cell therapy serves as an effective treatment for bone regeneration. Nevertheless, stem cells from bone marrow and peripheral blood are still lacking homologous properties. Dental pulp stem cells (DPSCs) are derived from neural crest, in coincidence with maxillofacial tissues, thus attracting great interest in in situ maxillofacial regenerative medicine. However, insufficient number and heterogenous alteration of seed cells retard further exploration of DPSC‐based tissue engineering. Electric stimulation has recently attracted great interest in tissue regeneration. In this study, a novel DPSC‐loaded conductive hydrogel microspheres integrated with wireless electric generator is fabricated. Application of exogenous electric cues can promote stemness maintaining and heterogeneity suppression for unpredictable differentiation of encapsulated DPSCs. Further investigations observe that electric signal fine‐tunes regenerative niche by improvement on DPSC‐mediated paracrine pattern, evidenced by enhanced angiogenic behavior and upregulated anti‐inflammatory macrophage polarization. By wireless electric stimulation on implanted conductive hydrogel microspheres, loaded DPSCs facilitates the construction of immuno‐angiogenic niche at early stage of tissue repair, and further contributes to advanced autologous mandibular bone defect regeneration. This novel strategy of DPSC‐based tissue engineering exhibits promising translational and therapeutic potential for autologous maxillofacial tissue regeneration.
Endoscopic on-site characterization of a large excavated lesion in longstanding ulcerative colitis using a novel bioinformatic tool
Authors: Andrej Wagner, Frieder Berr, Daniel Neureiter, Josef Holzinger, Franz Singhartinger
Journal: Endoscopy (2023)

In a previous study [1], we reported on a novel tool for real-time visualization and characterization based on bioinformatically enhanced quantitative endoscopic image analysis (BEE) of high definition white-light images. In brief, a grain analysis of selected areas of the endoscopic image is accomplished by thresholding algorithms, and a non-uniformity coefficient is calculated, inspired by soil mechanics and sieve curve terminology [2].
Molecular Engineering Design of Enhanced Donor–Acceptor Therapeutic Reagent for Efficient Image‐Guided Photodynamic Therapy (Adv. Healthcare Mater. 28/2023)
Authors: Tingting Zhao, Yanli Xu, Rui Liu, Xiaofei Shang, Ciyuan Huang, Wuqi Dong, Min Long, Bingsuo Zou, Xianwen Wang, Gang Li, Yuxian Shen, Tao Liu, Bo Tang
Journal: Advanced Healthcare Materials (2023)

Image-Guided Photodynamic Therapy In article 2301035, Tingting Zhao, Yuxian Shen, Tao Liu, Bo Tang and co-workers describe a novel donor–acceptor system through molecular engineering design with a bright red emission, large Stoke shift, enhanced singlet oxygen generation rate and excellent photodynamic properties, which exhibits excellent fluorescence imaging capability and noteworthy anti-tumor ability both in vitro and in vivo.
Doxorubicin‐Loaded Microrobots for Targeted Drug Delivery and Anticancer Therapy (Adv. Healthcare Mater. 28/2023)
Authors: Sudipta Mallick, Ramadan Abouomar, David Rivas, Max Sokolich, Fatma Ceren Kirmizitas, Aditya Dutta, Sambeeta Das
Journal: Advanced Healthcare Materials (2023)

Microbots In article 2300939 by Sambeeta Das and co-workers, a simple strategy to prepare doxurubicin-loaded microrobots (DOX-MRs) that are self-propelled in presence of an external magnetic field is presented. These microrobots are carboxylic group-functionalized paramagnetic beads that allow covalent conjugation of DOX on its outer surface. Microrobots are ingested by cancer cells after DOX-MRs treatment, where DOX is cleaved, and released by proteolytic enzyme activity.
Outdoor Worker Stress Monitoring Electronics with Nanofabric Radiative Cooler‐Based Thermal Management (Adv. Healthcare Mater. 28/2023)
Authors: Hojoong Kim, Young Jin Yoo, Joo Ho Yun, Se‐Yeon Heo, Young Min Song, Woon‐Hong Yeo
Journal: Advanced Healthcare Materials (2023)

Galvanic Skin Responses In article 2301104 by Young Min Song, Woon-Hong Yeo, and co-workers, a soft, field-deployable, wearable bioelectronic system is introduced for detecting outdoor workers' stress levels with negligible motion artifacts and controllable thermal management.
Bimekizumab safety in patients with moderate-to-severe plaque psoriasis: pooled data from up to 3 years of treatment in randomized phase III trials
Authors: Kenneth B Gordon, Richard G Langley, Richard B Warren, Yukari Okubo, David Rosmarin, Mark Lebwohl, Luke Peterson, Cynthia Madden, Dirk de Cuyper, Owen Davies, Diamant Thaçi
Journal: British Journal of Dermatology (2023)

Abstract Background Patients with psoriasis require long-term management; therefore, understanding the long-term safety of new treatments, such as bimekizumab (BKZ), is crucial. Objectives To evaluate BKZ’s 3-year safety profile in patients with moderate-to-severe plaque psoriasis. Methods Three years of safety data were pooled from three phase III trials (BE VIVID, BE READY and BE SURE) and their ongoing open-label extension (BE BRIGHT). Treatment-emergent adverse events (TEAEs) are reported using exposure-adjusted incidence rates (EAIRs) per 100 patient-years (PY). Results In total, 1495 patients received at least one BKZ dose; total BKZ exposure was 3876.4 PY. The overall EAIR of TEAEs was 175.5/100 PY and decreased with longer exposure to BKZ. The most commonly reported TEAEs were nasopharyngitis, oral candidiasis and upper respiratory tract infection (EAIRs of 15.0/100 PY, 10.1/100 PY and 6.5/100 PY, respectively); 99.3% of oral candidiasis events were mild or moderate in severity, none were serious and few led to discontinuation. EAIRs of other TEAEs of interest were low, including serious infections (1.2/100 PY), adjudicated inflammatory bowel disease (0.2/100 PY) and laboratory elevations in aspartate aminotransferase or alanine aminotransferase (&amp;gt; 5 × upper limit of normal: 0.6/100 PY). Conclusions In these analyses pooled across 3 years, no new safety signals were observed with longer exposure to BKZ. The vast majority of oral candidiasis events were mild or moderate in severity, as reported previously.
Pithoviruses Are Invaded by Repeats That Contribute to Their Evolution and Divergence from Cedratviruses
Authors: Sofia Rigou, Alain Schmitt, Jean-Marie Alempic, Audrey Lartigue, Peter Vendloczki, Chantal Abergel, Jean-Michel Claverie, Matthieu Legendre
Journal: Molecular Biology and Evolution (2023)

Pithoviridae are amoeba-infecting giant viruses possessing the largest viral particles known so far. Since the discovery of Pithovirus sibericum, recovered from a 30,000-yr-old permafrost sample, other pithoviruses, and related cedratviruses, were isolated from various terrestrial and aquatic samples. Here, we report the isolation and genome sequencing of 2 Pithoviridae from soil samples, in addition to 3 other recent isolates. Using the 12 available genome sequences, we conducted a thorough comparative genomic study of the Pithoviridae family to decipher the organization and evolution of their genomes. Our study reveals a nonuniform genome organization in 2 main regions: 1 concentrating core genes and another gene duplications. We also found that Pithoviridae genomes are more conservative than other families of giant viruses, with a low and stable proportion (5% to 7%) of genes originating from horizontal transfers. Genome size variation within the family is mainly due to variations in gene duplication rates (from 14% to 28%) and massive invasion by inverted repeats. While these repeated elements are absent from cedratviruses, repeat-rich regions cover as much as a quarter of the pithoviruses genomes. These regions, identified using a dedicated pipeline, are hotspots of mutations, gene capture events, and genomic rearrangements that contribute to their evolution.
Optimal Screening for Predicting and Preventing the Risk of Heart Failure Among Adults With Diabetes Without Atherosclerotic Cardiovascular Disease: A Pooled Cohort Analysis
Authors: Kershaw V. Patel, Matthew W. Segar, David C. Klonoff, Muhammad Shahzeb Khan, Muhammad Shariq Usman, Carolyn S.P. Lam, Subodh Verma, Andrew P. DeFilippis, Khurram Nasir, Stephan J.L. Bakker, B. Daan Westenbrink, Robin P.F. Dullaart, Javed Butler, Muthiah Vaduganathan, Ambarish Pandey
Journal: Circulation (2023)

The optimal approach to identify individuals with diabetes who are at a high risk for developing heart failure (HF) to inform implementation of preventive therapies is unknown, especially in those without atherosclerotic cardiovascular disease (ASCVD).
Redefining the Evolutionary History of the Rock Dove, <i>Columba livia</i>, Using Whole Genome Sequences
Authors: Germán Hernández-Alonso, Jazmín Ramos-Madrigal, Hein van Grouw, Marta Maria Ciucani, Emily Louisa Cavill, Mikkel-Holger S Sinding, Shyam Gopalakrishnan, George Pacheco, M Thomas P Gilbert
Journal: Molecular Biology and Evolution (2023)

The domestic pigeon's exceptional phenotypic diversity was key in developing Darwin's Theory of Evolution and establishing the concept of artificial selection. However, unlike its domestic counterpart, its wild progenitor, the rock dove Columba livia has received considerably less attention. Therefore, questions regarding its domestication, evolution, taxonomy, and conservation status remain unresolved. We generated whole-genome sequencing data from 65 historical rock doves that represent all currently recognized subspecies and span the species' original geographic distribution. Our dataset includes 3 specimens from Darwin's collection, and the type specimens of 5 different taxa. We characterized their population structure, genomic diversity, and gene-flow patterns. Our results show the West African subspecies C. l. gymnocyclus is basal to rock doves and domestic pigeons, and suggests gene-flow between the rock dove's sister species C. rupestris, and the ancestor of rock doves after its split from West African populations. These genomes allowed us to propose a model for the evolution of the rock dove in light of the refugia theory. We propose that rock dove genetic diversity and introgression patterns derive from a history of allopatric cycles and dispersion waves during the Quaternary glacial and interglacial periods. To explore the rock dove domestication history, we combined our new dataset with available genomes from domestic pigeons. Our results point to at least 1 domestication event in the Levant that gave rise to all domestic breeds analysed in this study. Finally, we propose a species-level taxonomic arrangement to reflect the evolutionary history of the West African rock dove populations.
Outcomes According to Coronary Revascularization Modality in the ISCHEMIA Trial
Authors: Bjorn Redfors, Gregg W. Stone, John H. Alexander, Eric R. Bates, Deepak L. Bhatt, Giuseppe Biondi-Zoccai, Tulio Caldonazo, Michael Farkouh, Mohamed Rahouma, John Puskas, Sigrid Sandner, Mario F.L. Gaudino
Journal: Journal of the American College of Cardiology (2023)